An Automated Method for Gridding in Microarray Images

Author

Giannakeas, Nikolaos ; Fotiadis, Dimitrios I. ; Politou, Anastasia S.

Author_Institution

Lab. of Biol. Chem., Ioannina Univ.

fYear

2006

Firstpage

5876

Lastpage

5879

Abstract

Microarray technology is a powerful tool for analyzing the expression of a large number of genes in parallel. A typical microarray image consists of a few thousands of spots which determine the level of gene expression in the sample. In this paper we propose a method which automatically addresses each spot area in the image. Initially, a preliminary segmentation of the image is produced using a template matching algorithm. Next, grid and spot finding are realized. The position of non-expressed spots is located and finally a Voronoi diagram is employed to fit the grid on the image. Our method has been evaluated in a set of five images consisting of 45960 spots, from the Stanford microarray database and the reported accuracy for spot detection was 93%

Keywords

biological techniques; biology computing; computational geometry; genetics; image matching; image segmentation; Stanford microarray database; Voronoi diagram; automated method; gene expression; image segmentation; microarray image gridding; microarray technology; spot detection; spot finding; template matching algorithm; Biomedical imaging; Chemistry; Cities and towns; Fluorescence; Gene expression; Image analysis; Image generation; Image segmentation; Laboratories; Pixel;

fLanguage

English

Publisher

ieee

Conference_Titel

Engineering in Medicine and Biology Society, 2006. EMBS '06. 28th Annual International Conference of the IEEE

ISSN

1557-170X

Print_ISBN

1-4244-0032-5

Electronic_ISBN

1557-170X

Type

conf

DOI

10.1109/IEMBS.2006.260782

Filename

4463144